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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacccctgatttttggtgtctttgagccagccatcatcgacatgcatgtatctgaactaatcaaccgatacgatctgtgtctgggcaacaacaaaaaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCTATGCTTTCTATTCCTGCGAGCAACGGGTTCGAGATTGGCAGCGGATTCG

Basic information

species Zea mays
transcript GRMZM2G036861_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G036861_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g14990.1 (Oryza sativa), 3'ss of exon 8
-----gtaagtacccctgatttttggtgtctttgagccagccatcatcgacatgcatgtatctgaactaatcaaccgatacgatctgtgtctgggcaacaacaaaaaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCTATGCTTTCTATTCCTGCGAGCAACGGGTTCGAGATTGGCAGCGGATTCG
       || |     |||   |||  |  |      ||  ||| |   | ||   | | |||    | | | || |||| |||        | ||||| ||||    | |  ||||| | || |||||||| || ||||| || ||  | ||| |||| ||||||||||||||| ||||||| ||||| ||||| ||||| ||||| ||||| |
ttgcacaaaatctgtttgaacattgaagctt---gatcattcattagaaaaatattttt-tctctgttgagctactgatatgata-------gagcaacgacaa----tttgtagGGGATTGGCTCTCCTGTATTTGACAAACTTGAGGCTGAATTGGCGAAAGCTATGCTTTCTCTTCCTGCAAGCAAGGGGTTTGAGATCGGCAGTGGATTTG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|78109643|gb|DV528059.1|DV528059
EST:     GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGC                         GGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
genomic: GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGCgtaagtaccc ... aaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
EST: gi|211012763|gb|FL448392.1|FL448392
EST:     GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGC                         GGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
genomic: GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGCgtaagtaccc ... aaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
EST: gi|76281789|gb|DV021357.1|DV021357
EST:     TCGCTAGAAACGTTCCTCGC                         GGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
genomic: TCGCTAGAAACGTTCCTCGCgtaagtaccc ... aaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
EST: gi|149098824|gb|EE184837.2|EE184837
EST:     GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGC                         GGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
genomic: GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGCgtaagtaccc ... aaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
EST: gi|78109644|gb|DV528060.1|DV528060
EST:     GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGC                         GGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT
genomic: GGGATTCGGTCGGTGGAGTGATCACATGCGTCGCTAGAAACGTTCCTCGCgtaagtaccc ... aaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaactaatcaaccgatacgatctgtgtctgggcaacaacaaaaaatgtacagGGGCTCGGTTCTCCTGTGTTCGACAAGCTCGAATCCGAACTGGCAAAAGCTATGCTTTCTATTCCTGCGAGCAACGGGTTCGAGATTGGCAGCGGATTCG
    aactaat  putative branch site (score: 2)
                                       aacaaaaaat  TA-rich tract